Yubing Bao , Xin Du , Zhihui Lu , Jirui Yang , Shih-Chia Huang , Jianfeng Feng , Qibao Zheng
{"title":"通过去除边缘缓解大脑模拟中的关键节点","authors":"Yubing Bao , Xin Du , Zhihui Lu , Jirui Yang , Shih-Chia Huang , Jianfeng Feng , Qibao Zheng","doi":"10.1016/j.comnet.2024.110860","DOIUrl":null,"url":null,"abstract":"<div><div>Brain simulation holds promise for advancing our comprehension of brain mechanisms, brain-inspired intelligence, and addressing brain-related disorders. However, during brain simulations on high-performance computing platforms, the sparse and irregular communication patterns within the brain can lead to the emergence of critical nodes in the simulated network, which in turn become bottlenecks for inter-process communication. Therefore, effective moderation of critical nodes is crucial for the smooth conducting of brain simulation. In this paper, we formulate the routing communication problem commonly encountered in brain simulation networks running on supercomputers. To address this issue, we firstly propose the Node-Edge Centrality Addressing Algorithm (NCA) for identifying critical nodes and edges, based on an enhanced closeness centrality metric. Furthermore, drawing on the homology of spikes observed in biological brains, we develop the Edge Removal Transit Algorithm (ERT) to reorganize sparse and unbalanced inter-process communication in brain simulation, thereby diminishing the information centrality of critical nodes. Through extensive simulation experiments, we evaluate the performance of the proposed communication scheme and find that the algorithm accurately identifies critical nodes with a high accuracy. Our simulation experiments on 1600 GPU cards demonstrate that our approach can reduce communication latency by up to 25.4%, significantly shortening simulation time in large-scale brain simulations.</div></div>","PeriodicalId":50637,"journal":{"name":"Computer Networks","volume":"255 ","pages":"Article 110860"},"PeriodicalIF":4.4000,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Mitigating critical nodes in brain simulations via edge removal\",\"authors\":\"Yubing Bao , Xin Du , Zhihui Lu , Jirui Yang , Shih-Chia Huang , Jianfeng Feng , Qibao Zheng\",\"doi\":\"10.1016/j.comnet.2024.110860\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><div>Brain simulation holds promise for advancing our comprehension of brain mechanisms, brain-inspired intelligence, and addressing brain-related disorders. However, during brain simulations on high-performance computing platforms, the sparse and irregular communication patterns within the brain can lead to the emergence of critical nodes in the simulated network, which in turn become bottlenecks for inter-process communication. Therefore, effective moderation of critical nodes is crucial for the smooth conducting of brain simulation. In this paper, we formulate the routing communication problem commonly encountered in brain simulation networks running on supercomputers. To address this issue, we firstly propose the Node-Edge Centrality Addressing Algorithm (NCA) for identifying critical nodes and edges, based on an enhanced closeness centrality metric. Furthermore, drawing on the homology of spikes observed in biological brains, we develop the Edge Removal Transit Algorithm (ERT) to reorganize sparse and unbalanced inter-process communication in brain simulation, thereby diminishing the information centrality of critical nodes. Through extensive simulation experiments, we evaluate the performance of the proposed communication scheme and find that the algorithm accurately identifies critical nodes with a high accuracy. Our simulation experiments on 1600 GPU cards demonstrate that our approach can reduce communication latency by up to 25.4%, significantly shortening simulation time in large-scale brain simulations.</div></div>\",\"PeriodicalId\":50637,\"journal\":{\"name\":\"Computer Networks\",\"volume\":\"255 \",\"pages\":\"Article 110860\"},\"PeriodicalIF\":4.4000,\"publicationDate\":\"2024-10-16\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Computer Networks\",\"FirstCategoryId\":\"94\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S1389128624006923\",\"RegionNum\":2,\"RegionCategory\":\"计算机科学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"COMPUTER SCIENCE, HARDWARE & ARCHITECTURE\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Computer Networks","FirstCategoryId":"94","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S1389128624006923","RegionNum":2,"RegionCategory":"计算机科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"COMPUTER SCIENCE, HARDWARE & ARCHITECTURE","Score":null,"Total":0}
Mitigating critical nodes in brain simulations via edge removal
Brain simulation holds promise for advancing our comprehension of brain mechanisms, brain-inspired intelligence, and addressing brain-related disorders. However, during brain simulations on high-performance computing platforms, the sparse and irregular communication patterns within the brain can lead to the emergence of critical nodes in the simulated network, which in turn become bottlenecks for inter-process communication. Therefore, effective moderation of critical nodes is crucial for the smooth conducting of brain simulation. In this paper, we formulate the routing communication problem commonly encountered in brain simulation networks running on supercomputers. To address this issue, we firstly propose the Node-Edge Centrality Addressing Algorithm (NCA) for identifying critical nodes and edges, based on an enhanced closeness centrality metric. Furthermore, drawing on the homology of spikes observed in biological brains, we develop the Edge Removal Transit Algorithm (ERT) to reorganize sparse and unbalanced inter-process communication in brain simulation, thereby diminishing the information centrality of critical nodes. Through extensive simulation experiments, we evaluate the performance of the proposed communication scheme and find that the algorithm accurately identifies critical nodes with a high accuracy. Our simulation experiments on 1600 GPU cards demonstrate that our approach can reduce communication latency by up to 25.4%, significantly shortening simulation time in large-scale brain simulations.
期刊介绍:
Computer Networks is an international, archival journal providing a publication vehicle for complete coverage of all topics of interest to those involved in the computer communications networking area. The audience includes researchers, managers and operators of networks as well as designers and implementors. The Editorial Board will consider any material for publication that is of interest to those groups.